*Target (protein/gene name): Trehalose-phosphate phosphatase *NCBI Gene # or RefSeq#: 16082598 *Protein ID (NP or XP #) or Wolbachia#:
NP_394665
*Organism (including strain): Thermoplasma Acidophilum Etiologic Risk Group (see link below):
Risk Group 3 (RG3) *Background/Disease Information: Thermoplasma Acidophilum is known to be one of the causes of diseases such as congenital heart disease and Parkinson's Disease. http://www.sciencedirect.com/science/article/pii/S0003986104000931
-- List cost and quantity of substrate reagents and supplier HEPES 25 grams, $38.70 Structure Available (PDB or Homology model)
-- PDB # or closest PDB entry if using homology model:1U02
*Amino Acid Sequence (paste as text only - not as screenshot or as 'code'):
>1U02:A|PDBID|CHAIN|SEQUENCE MIEQSLEDALYAIVTQNPMIFLDYDGTLVPIIMNPEESYADAGLLSLISDLKERFDTYIVTGRSPEEISR FLPLDINMICYHGACSKINGQIVYNNGSDRFLGVFDRIYEDTRSWVSDFPGLRIYRKNLAVLYHLGLMGA DMKPKLRSRIEEIARIFGVETYYGKMIIELRVPGVNKGSAIRSVRGERPAIIAGDDATDEAAFEANDDAL TIKVGEGETHAKFHVADYIEMRKILKFIEMLGVQKKQ
*length of your protein in Amino Acids:
247 Residues Molecular Weight of your protein in kiloDaltons using the Expasy ProtParam website:
27105 Molar Extinction coefficient of your protein at 280 nm wavelength:
M-1 cm-1, at 280 nm measured in water TMpred graph Image (http://www.ch.embnet.org/software/TMPRED_form.html). Input your amino acid sequence to it.
*CDS Gene Sequence (paste as text only): ATGATAGAACAGTCACTTGAAGATGCACTTTATGCCATAGTAACGCAGAACCCCATGATATTCCTCGATT ATGACGGCACGCTTGTGCCGATAATAATGAACCCGGAGGAGAGCTATGCTGATGCTGGTCTCCTCTCGCT GATATCCGATCTTAAAGAAAGATTTGATACCTATATCGTTACGGGAAGATCTCCCGAGGAAATAAGCAGG TTTCTGCCACTTGACATAAATATGATCTGCTATCATGGCGCATGTTCGAAGATCAATGGGCAGATCGTTT ACAACAATGGATCAGATCGCTTCCTTGGAGTCTTCGACAGAATATACGAAGATACAAGGTCATGGGTATC TGATTTCCCGGGGCTCAGGATATATAGGAAGAATCTTGCAGTGCTGTATCATCTCGGACTTATGGGGGCG GATATGAAGCCAAAATTAAGATCGAGGATCGAAGAGATAGCCAGAATATTTGGAGTGGAAACATATTACG GGAAGATGATCATAGAGCTCCGTGTTCCCGGCGTTAACAAGGGATCTGCAATAAGGTCTGTAAGAGGAGA AAGGCCGGCCATAATAGCAGGCGATGATGCTACCGACGAGGCGGCCTTCGAAGCCAATGATGACGCGCTT ACAATAAAAGTCGGAGAAGGAGAAACGCACGCAAAGTTTCACGTGGCAGATTACATAGAAATGCGAAAAA TACTTAAGTTCATAGAAATGTTAGGAGTTCAGAAAAAGCAATAA
Do Not Need this info for Spring (but still copy these lines to your Target page for now) Primer design results for pNIC-Bsa4 cloning (list seqeunces of all of your ~40 nt long primers): (link to DNA Works output text file - that should be saved in your Google Docs folder after you did the primer design protocol)
-- Ask a mentor, Dr. B, or a fellow researcher -how to link a GDocs file if you are not sure how to.
Primer design results for 'tail' primers (this is just 2 sequences):
*NCBI Gene # or RefSeq#: 16082598
*Protein ID (NP or XP #) or Wolbachia#:
NP_394665
*Organism (including strain): Thermoplasma Acidophilum
Etiologic Risk Group (see link below):
Risk Group 3 (RG3)
*Background/Disease Information: Thermoplasma Acidophilum is known to be one of the causes of diseases such as congenital heart disease and Parkinson's Disease.
http://www.sciencedirect.com/science/article/pii/S0003986104000931
Druggable Target:
Yes
*EC#: 3.3.1.12
Link to BRENDA EC# page:
http://www.brenda-enzymes.org/php/result_flat.php4?ecno=3.1.3.12&Suchword=&organism[]=Mycobacterium+tuberculosis&show_tm=0
Enzyme Assay information (spectrophotometric, coupled assay ?, reagents):
http://mic.sgmjournals.org/content/137/2/323.full.pdf+html
-- link to Sigma (or other company) page for assay or assay reagents (substrates)
http://www.sigmaaldrich.com/catalog/search?interface=All&term=mycobacterium+tuberculosis+trehalose-phosphate+phosphatase&lang=en®ion=US&focus=site&N=0+220003052+219853269+219853286&mode=match%20partialmax
-- link (or citation) to paper that contains assay information
http://mic.sgmjournals.org/content/137/2/323.full.pdf+html
-- List cost and quantity of substrate reagents and supplier
HEPES
25 grams, $38.70
Structure Available (PDB or Homology model)
-- PDB # or closest PDB entry if using homology model:1U02
Current Inhibitors:
Diumycin
Moenomycin
Expression Information (has it been expressed in bacterial cells):
http://www.jbc.org/content/278/4/2093.short
Purification Method:
http://www.jbc.org/content/278/4/2093.short
Image of protein (PyMol with features delineated and shown separately):
*Amino Acid Sequence (paste as text only - not as screenshot or as 'code'):
>1U02:A|PDBID|CHAIN|SEQUENCE
MIEQSLEDALYAIVTQNPMIFLDYDGTLVPIIMNPEESYADAGLLSLISDLKERFDTYIVTGRSPEEISR FLPLDINMICYHGACSKINGQIVYNNGSDRFLGVFDRIYEDTRSWVSDFPGLRIYRKNLAVLYHLGLMGA DMKPKLRSRIEEIARIFGVETYYGKMIIELRVPGVNKGSAIRSVRGERPAIIAGDDATDEAAFEANDDAL TIKVGEGETHAKFHVADYIEMRKILKFIEMLGVQKKQ
*length of your protein in Amino Acids:
247 Residues
Molecular Weight of your protein in kiloDaltons using the Expasy ProtParam website:
27105
Molar Extinction coefficient of your protein at 280 nm wavelength:
M-1 cm-1, at 280 nm measured in water
TMpred graph Image (http://www.ch.embnet.org/software/TMPRED_form.html). Input your amino acid sequence to it.
*CDS Gene Sequence (paste as text only):
ATGATAGAACAGTCACTTGAAGATGCACTTTATGCCATAGTAACGCAGAACCCCATGATATTCCTCGATT ATGACGGCACGCTTGTGCCGATAATAATGAACCCGGAGGAGAGCTATGCTGATGCTGGTCTCCTCTCGCT GATATCCGATCTTAAAGAAAGATTTGATACCTATATCGTTACGGGAAGATCTCCCGAGGAAATAAGCAGG TTTCTGCCACTTGACATAAATATGATCTGCTATCATGGCGCATGTTCGAAGATCAATGGGCAGATCGTTT ACAACAATGGATCAGATCGCTTCCTTGGAGTCTTCGACAGAATATACGAAGATACAAGGTCATGGGTATC TGATTTCCCGGGGCTCAGGATATATAGGAAGAATCTTGCAGTGCTGTATCATCTCGGACTTATGGGGGCG GATATGAAGCCAAAATTAAGATCGAGGATCGAAGAGATAGCCAGAATATTTGGAGTGGAAACATATTACG GGAAGATGATCATAGAGCTCCGTGTTCCCGGCGTTAACAAGGGATCTGCAATAAGGTCTGTAAGAGGAGA AAGGCCGGCCATAATAGCAGGCGATGATGCTACCGACGAGGCGGCCTTCGAAGCCAATGATGACGCGCTT ACAATAAAAGTCGGAGAAGGAGAAACGCACGCAAAGTTTCACGTGGCAGATTACATAGAAATGCGAAAAA TACTTAAGTTCATAGAAATGTTAGGAGTTCAGAAAAAGCAATAA
Do Not Need this info for Spring (but still copy these lines to your Target page for now)
Primer design results for pNIC-Bsa4 cloning (list seqeunces of all of your ~40 nt long primers):
(link to DNA Works output text file - that should be saved in your Google Docs folder after you did the primer design protocol)
-- Ask a mentor, Dr. B, or a fellow researcher -how to link a GDocs file if you are not sure how to.
Primer design results for 'tail' primers (this is just 2 sequences):